Variables compound for 2Dfold partition function folding. More...

Collaboration diagram for TwoDpfold_vars:

Data Fields
char *	ptype
	Precomputed array of pair types.

char *	sequence
	The input sequence.

short *	S1
	The input sequences in numeric form.

unsigned int	maxD1
	Maximum allowed base pair distance to first reference.

unsigned int	maxD2
	Maximum allowed base pair distance to second reference.

int *	my_iindx
	Index for moving in quadratic distancy dimensions.

int *	jindx
	Index for moving in the triangular matrix qm1.

unsigned int *	referenceBPs1
	Matrix containing number of basepairs of reference structure1 in interval [i,j].

unsigned int *	referenceBPs2
	Matrix containing number of basepairs of reference structure2 in interval [i,j].

unsigned int *	bpdist
	Matrix containing base pair distance of reference structure 1 and 2 on interval [i,j].

unsigned int *	mm1
	Maximum matching matrix, reference struct 1 disallowed.

unsigned int *	mm2
	Maximum matching matrix, reference struct 2 disallowed.

Detailed Description

Variables compound for 2Dfold partition function folding.

Deprecated:: This data structure will be removed from the library soon! Use vrna_fold_compound_t and the corresponding functions vrna_fold_compound_TwoD(), vrna_pf_TwoD(), and vrna_fold_compound_free() instead!

The documentation for this struct was generated from the following file:

Data Fields